TB Profiler
This tool processes raw sequence data to infer strain type and identify known drug resistance markers.
A stand alone version of this tool is now available and can now be run on linux or mac. Installation instructions can be found on GitHub and on the bioconda page.



This tool is for Research Use Only. Data and information provided through use of this tool are not intended for medical purpose or objective and should not be used for clinical diagnosis, patient management, or human clinical trials.
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Single nucleotide polymorphisms (SNPs) in coding regions are annotated using the reference amino acid, codon number and alternative amino acid (e.g. Ser315Thr in katG). SNPs in non-coding regions (i.e. RNA genes and intergenic regions) are annotated using the reference nucleotide, gene coordinate and alternative nucleotide (e.g. A1401G in rrs or C-37A in eis promoter). Indels are annotated using the reference VCF allele, gene coordinate and alternative VCF allele (e.g. T902TA insertion in katG).
Name: 5d7b842c6fc68
Sample: 5d7b842c6fc68

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Summary
ID: 5d7b842c6fc68
Date: Fri Sep 13 13:00:43 2019
Strain: lineage4.3;lineage4.1.1;lineage3.1.2;lineage1.1.1
Drug-resistance: Drug-resistant

Drug1ResistanceSupporting Mutations (frequency)
Isoniazid
Rifampicin
EthambutolRembB p.Ala659Thr (1.00)
PyrazinamideRpanD p.Val138Ala (1.00)
StreptomycinRrrs r.462c>t (0.97)
Ethionamide
Fluoroquinolones
Amikacin
Capreomycin
Kanamycin

Lineage2FamilyMain SpoligotypeRDS
lineage4.3Euro-American (LAM)mainly-LAMNone
lineage4.1.1Euro-American (X-type)X1;X2;X3None
lineage3.1.2East-African-IndianCAS;CAS2RD750
lineage1.1.1Indo-OceanicEAI4;EAI5RD239

Mutations in candidate genes:
GeneChromosome PositionMutationEstimated fraction
gyrB5824c.585A>G1.000
gyrB5827c.588G>A1.000
gyrB5849c.610C>T1.000
gyrB5854c.615C>A1.000
gyrB5863c.624G>C1.000
gyrB5873c.634A>C1.000
gyrB5880p.Thr214Ser1.000
gyrB5882p.Gln215Asn1.000
gyrB5887p.Asp216Glu1.000
gyrB5902c.663A>G1.000
gyrB5905c.666G>C1.000
gyrB6139c.900G>C1.000
gyrB6319c.1080G>C1.000
gyrB6361c.1122G>A1.000
gyrB6362c.1123T>C1.000
gyrB6610c.1371C>G1.000
gyrB6613c.1374A>G1.000
gyrB6616c.1377A>G1.000
gyrB6622c.1383C>T1.000
gyrB6634c.1395T>C1.000
gyrB6637c.1398T>G1.000
gyrB6640c.1401A>G1.000
gyrB6649c.1410T>C1.000
gyrB6655c.1416T>C1.000
gyrB6670c.1431G>C1.000
gyrB6673c.1434A>C1.000
gyrB6676c.1437T>G1.000
gyrB6700c.1461T>C1.000
gyrB6703c.1464G>C1.000
gyrB6709c.1470A>G1.000
gyrB6712c.1473G>C1.000
gyrB6728c.1489C>T1.000
gyrB6742c.1503A>G1.000
gyrB6745c.1506T>G1.000
gyrB6751c.1512G>C1.000
gyrB6760c.1521G>C1.000
gyrB6763c.1524G>C1.000
gyrB6775c.1536G>C1.000
gyrB6793c.1554T>C1.000
gyrB6797p.Gly520Thr1.000
gyrB6811c.1572C>T1.000
gyrB6949c.1710A>G1.000
gyrB6952c.1713C>G1.000
gyrB6967c.1728T>C1.000
gyrB6973c.1734G>C1.000
gyrB6982c.1743A>C1.000
gyrB7007c.1768C>T1.000
gyrB7010c.1771C>T1.000
gyrB7023p.Leu595Gln1.000
gyrB7033c.1794G>C1.000
gyrB7051p.Glu604Asp1.000
gyrB7141c.1902T>C1.000
gyrB7165c.1926C>G0.714
gyrB7178c.1939T>C1.000
gyrB7186c.1947C>G1.000
gyrB7216c.1977G>C1.000
gyrB7228c.1989C>T1.000
gyrA7361c.60C>T1.000
gyrA7362p.Glu21Gln1.000
gyrA7391c.90C>T1.000
gyrA7394c.93T>C1.000
gyrA7406c.105G>C1.000
gyrA7427c.126G>C1.000
gyrA7442c.141G>C1.000
gyrA7451c.150C>G1.000
gyrA7457c.156T>C1.000
gyrA7514c.213C>G1.000
gyrA7532c.231T>C1.000
gyrA7541c.240C>G1.000
gyrA7601c.300C>G1.000
gyrA7607c.306C>G1.000
gyrA7814c.513C>G1.000
gyrA7823c.522G>C1.000
gyrA7832c.531G>T1.000
gyrA7835c.534A>G1.000
gyrA7853c.552C>G1.000
gyrA7859c.558A>G1.000
gyrA7865c.564T>C1.000
gyrA7886c.585T>C1.000
gyrA8069c.768T>C1.000
gyrA8078c.777A>G1.000
gyrA8090c.789C>A1.000
gyrA8096c.795T>A1.000
gyrA8099c.798T>C1.000
gyrA8111c.810G>C1.000
gyrA8121c.820T>C1.000
gyrA8129c.828T>C1.000
gyrA8135c.834C>G1.000
gyrA8156c.855T>C1.000
gyrA8168c.867A>G0.895
gyrA8177c.876A>C0.895
gyrA8189c.888G>C1.000
gyrA8198c.897T>C1.000
gyrA8207c.906T>C1.000
gyrA8219c.918T>C1.000
gyrA8225c.924T>C1.000
gyrA8234c.933T>C1.000
gyrA8237c.936A>G1.000
gyrA8247p.Ile316Val1.000
gyrA8264c.963T>C1.000
gyrA8267c.966G>C1.000
gyrA8270c.969G>C1.000
gyrA8276c.975G>A1.000
gyrA8283p.Ile328Leu1.000
gyrA8288c.987T>C1.000
gyrA8294c.993T>C1.000
gyrA8324c.1023T>C1.000
gyrA8330c.1029C>G1.000
gyrA8337c.1036C>T1.000
gyrA8342c.1041G>C1.000
gyrA8366c.1065G>T1.000
gyrA8367c.1066C>T1.000
gyrA8372c.1071G>C1.000
gyrA8375c.1074G>C1.000
gyrA8382p.Leu361Met1.000
gyrA8391p.Tyr364His1.000
gyrA8399c.1098T>C1.000
gyrA8400p.Asp367Asn1.000
gyrA8417c.1116C>G1.000
gyrA8420c.1119T>C1.000
gyrA8423c.1122G>C1.000
gyrA8442c.1141C>T1.000
gyrA8453c.1152A>C1.000
gyrA8480c.1179C>A1.000
gyrA8486c.1185T>C1.000
gyrA8504c.1203G>C1.000
gyrA8516c.1215T>C1.000
gyrA8531c.1230G>C1.000
gyrA8543c.1242C>G1.000
gyrA8603c.1302A>G1.000
gyrA8619c.1318T>C1.000
gyrA8624c.1323G>C0.846
gyrA8636c.1335A>C0.882
gyrA8642c.1341A>G1.000
gyrA8672c.1371A>G1.000
gyrA8678c.1377G>A1.000
gyrA8693c.1392T>C1.000
gyrA8696c.1395G>C1.000
gyrA8699c.1398A>G1.000
gyrA8708c.1407G>C1.000
gyrA8711c.1410A>C1.000
gyrA8714c.1413A>G1.000
gyrA8729c.1428T>C1.000
gyrA8731p.Gly477Ala1.000
gyrA8740p.Arg480His1.000
gyrA8747c.1446A>G1.000
gyrA8750c.1449C>G1.000
gyrA8751p.Ala484Ser1.000
gyrA8762c.1461G>C1.000
gyrA8767p.Arg489Lys1.000
gyrA8780p.Asp493Glu1.000
gyrA8786c.1485T>C1.000
gyrA8801c.1500G>C1.000
gyrA8807c.1506C>T1.000
gyrA8810c.1509A>G1.000
gyrA8816c.1515C>G1.000
gyrA8818p.Ser506Asn1.000
gyrA8828c.1527T>C1.000
gyrA8829c.1528T>C1.000
gyrA8852c.1551T>C1.000
gyrA8891c.1590G>A1.000
gyrA8897c.1596T>C1.000
gyrA8903c.1602T>C1.000
gyrA8933c.1632G>C1.000
gyrA8946c.1645T>C1.000
gyrA8966c.1665C>G1.000
gyrA8967p.Ala556Arg1.000
gyrA8987c.1686C>A1.000
gyrA8990c.1689C>G1.000
gyrA8996c.1695T>C1.000
gyrA8998p.Leu566Trp1.000
gyrA9017c.1716C>G1.000
gyrA9023c.1722A>G1.000
gyrA9029c.1728T>C1.000
gyrA9032c.1731T>C1.000
gyrA9050p.Asp583Glu1.000
gyrA9051c.1750T>C1.000
gyrA9056c.1755C>G1.000
gyrA9062c.1761C>G1.000
gyrA9065c.1764C>G1.000
gyrA9068c.1767G>C1.000
gyrA9071c.1770G>C1.000
gyrA9080c.1779G>T1.000
gyrA9089c.1788G>C1.000
gyrA9099c.1798T>C1.000
gyrA9104c.1803C>G1.000
gyrA9119c.1818A>G0.952
gyrA9122c.1821C>A1.000
gyrA9143c.1842T>C1.000
gyrA9153p.Thr618Glu1.000
gyrA9158c.1857C>T1.000
gyrA9161c.1860C>G1.000
gyrA9182c.1881T>C1.000
gyrA9191c.1890G>C1.000
gyrA9200c.1899A>G1.000
gyrA9204p.Ser635Thr1.000
gyrA9218c.1917C>T1.000
gyrA9227c.1926C>G1.000
gyrA9230c.1929T>C1.000
gyrA9233c.1932C>G1.000
gyrA9267p.Asn656Gly1.000
gyrA9293c.1992G>C1.000
gyrA9296c.1995T>C1.000
gyrA9299c.1998G>C1.000
gyrA9304p.Gly668Glu1.000
gyrA9308c.2007C>T1.000
gyrA9312c.2011C>T1.000
gyrA9317c.2016G>T1.000
gyrA9323c.2022C>G1.000
gyrA9335c.2034G>C1.000
gyrA9345c.2044A>C1.000
gyrA9365c.2064G>A1.000
gyrA9374c.2073G>C1.000
gyrA9377c.2076A>G1.000
gyrA9383c.2082T>C1.000
gyrA9560c.2259C>G1.000
gyrA9566c.2265C>T1.000
gyrA9572c.2271C>T1.000
gyrA9585c.2284T>C1.000
gyrA9590c.2289T>C1.000
gyrA9593c.2292G>C1.000
gyrA9602c.2301T>C1.000
gyrA9611p.Asp770Glu1.000
gyrA9626c.2325T>C1.000
gyrA9629c.2328C>G1.000
gyrA9630p.Val777Ile1.000
gyrA9635c.2334T>C1.000
gyrA9638c.2337C>G1.000
gyrA9644c.2343T>G1.000
gyrA9650c.2349G>C1.000
gyrA9656c.2355C>G1.000
gyrA9665c.2364A>C1.000
gyrA9666p.Arg789Gly1.000
gyrA9674c.2373T>C1.000
gyrA9701c.2400T>C1.000
gyrA9704c.2403T>G1.000
gyrA9708c.2407T>C1.000
gyrA9716c.2415T>C1.000
rpoB759606c.-201T>C1.000
rpoB759629c.-178T>C1.000
rpoB760091c.285G>C1.000
rpoB760101c.295T>C1.000
rpoB760130p.Asp108Glu1.000
rpoB760139c.333A>G1.000
rpoB760142c.336C>G1.000
rpoB760181c.375T>C1.000
rpoB760184c.378A>G1.000
rpoB760196c.390C>G1.000
rpoB760223c.417T>C1.000
rpoB760235c.429T>C1.000
rpoB760283c.477G>C1.000
rpoB760298c.492G>C1.000
rpoB760307c.501T>C1.000
rpoB760310c.504G>C1.000
rpoB760328c.522G>C1.000
rpoB760331c.525G>C1.000
rpoB760340c.534G>T1.000
rpoB760361c.555T>C1.000
rpoB760370c.564C>G1.000
rpoB760376p.Asp190Glu1.000
rpoB760380p.Thr192Leu1.000
rpoB760406c.600G>C1.000
rpoB760412c.606C>G1.000
rpoB760424c.618C>G1.000
rpoB760430c.624T>C1.000
rpoB760475c.669A>G1.000
rpoB760481c.675G>C1.000
rpoB760484c.678A>G1.000
rpoB760563p.Arg253Met1.000
rpoB760591p.Val262Ala1.000
rpoB760611c.805T>C1.000
rpoB760634c.828T>C1.000
rpoB760646c.840C>G1.000
rpoB760655c.849A>G1.000
rpoB760661c.855A>C1.000
rpoB760670c.864G>C1.000
rpoB760674c.868T>C1.000
rpoB760679c.873A>G1.000
rpoB760683c.877T>C1.000
rpoB760718c.912C>T1.000
rpoB760724c.918T>C1.000
rpoB760730c.924T>C1.000
rpoB760751c.945G>C1.000
rpoB760775c.969G>C0.500
rpoB760776c.970T>A0.500
rpoB760925c.1119T>C1.000
rpoB760928c.1122G>C1.000
rpoB760931c.1125C>G1.000
rpoB760934c.1128C>T1.000
rpoB760946c.1140A>G1.000
rpoB760982c.1176G>C1.000
rpoB760985c.1179G>C1.000
rpoB760991c.1185G>C1.000
rpoB761006c.1200C>G1.000
rpoB761015c.1209G>C1.000
rpoB761057c.1251G>C1.000
rpoB761102c.1296A>G1.000
rpoB761129c.1323G>C1.000
rpoB761132c.1326G>T0.933
rpoB761133c.1327T>C0.933
rpoB761150c.1344A>C1.000
rpoB761153c.1347G>C1.000
rpoB761165c.1359G>C1.000
rpoB761180c.1374A>C1.000
rpoB761189c.1383T>C1.000
rpoB761195c.1389G>C1.000
rpoB761207c.1401C>T1.000
rpoB761213c.1407G>C1.000
rpoB761219c.1413G>C1.000
rpoB761249c.1443A>G1.000
rpoB761255c.1449T>G1.000
rpoB761261c.1455G>T1.000
rpoB761306c.1500C>G1.000
rpoB761312c.1506G>C1.000
rpoB761327c.1521A>G1.000
rpoB761330c.1524G>C1.000
rpoB761354c.1548C>T1.000
rpoB761408c.1602G>C1.000
rpoB761414c.1608A>G1.000
rpoB761423c.1617T>C1.000
rpoB761435c.1629T>C1.000
rpoB761438c.1632G>C1.000
rpoB761439p.Asp545Lys1.000
rpoB761444c.1638T>C1.000
rpoB761447c.1641C>G1.000
rpoB761452p.Val549Glu1.000
rpoB761457p.Pro551Ser1.000
rpoB761477c.1671C>G1.000
rpoB761492c.1686G>C1.000
rpoB761510c.1704T>C1.000
rpoB761537c.1731C>G1.000
rpoB761570c.1764T>C1.000
rpoB761573c.1767C>G1.000
rpoB761579c.1773G>C1.000
rpoB761588c.1782C>T1.000
rpoB761606c.1800C>G1.000
rpoB761612c.1806G>C1.000
rpoB761615c.1809A>C1.000
rpoB761636c.1830G>T1.000
rpoB761645c.1839C>G1.000
rpoB761648c.1842T>C1.000
rpoB761657c.1851C>G1.000
rpoB761675c.1869G>C1.000
rpoB761791p.Arg662His1.000
rpoB761813c.2007T>C1.000
rpoB761815p.Ala670Glu1.000
rpoB761873c.2067A>C1.000
rpoB762131c.2325C>G0.500
rpoB762293c.2487T>C1.000
rpoB762317c.2511A>G1.000
rpoB762329c.2523G>C1.000
rpoB762338c.2532T>C1.000
rpoB762347c.2541T>C1.000
rpoB762362p.Glu852Asp1.000
rpoB762369c.2563T>C1.000
rpoB762416c.2610A>G1.000
rpoB762419c.2613C>G1.000
rpoB762434c.2628T>C1.000
rpoB762449c.2643C>A1.000
rpoB762467c.2661C>T1.000
rpoB762488c.2682G>C1.000
rpoB762489p.Val895Gln1.000
rpoB762509c.2703T>G1.000
rpoB762510p.Ala902Pro1.000
rpoB762521c.2715C>T1.000
rpoB762533c.2727T>C1.000
rpoB762536c.2730T>C1.000
rpoB762537c.2731T>C1.000
rpoB762551c.2745C>G1.000
rpoB762581c.2775T>C1.000
rpoB762582c.2776T>C1.000
rpoB762729p.Gln975Lys1.000
rpoB762758c.2952G>C1.000
rpoB762782c.2976T>C1.000
rpoB762785p.Asp993Glu1.000
rpoB762788c.2982G>C1.000
rpoB762789p.Leu995Met1.000
rpoB762794c.2988C>G0.857
rpoB762799p.Ala998Gly0.857
rpoB762810p.Ala1002Ser0.857
rpoB762813p.Met1003Val1.000
rpoB762818c.3012C>G1.000
rpoB762827c.3021G>C1.000
rpoB762857c.3051C>G1.000
rpoB762860c.3054G>C1.000
rpoB762863c.3057T>C1.000
rpoB762926c.3120C>T1.000
rpoB762929c.3123G>C1.000
rpoB762989c.3183G>C1.000
rpoB762995c.3189G>T1.000
rpoB763013c.3207C>G1.000
rpoB763025c.3219C>T1.000
rpoB763028c.3222T>C1.000
rpoB763031c.3225T>G1.000
rpoB763034c.3228C>G1.000
rpoB763040c.3234C>G1.000
rpoB763070c.3264T>C1.000
rpoB763085c.3279C>G1.000
rpoB763115c.3309T>C1.000
rpoB763136c.3330C>T1.000
rpoB763148c.3342G>C1.000
rpoB763158c.3352C>T1.000
rpoB763166c.3360A>G1.000
rpoB763190c.3384C>T1.000
rpoC763402c.33C>G1.000
rpoC763411c.42T>G1.000
rpoC763414c.45T>C1.000
rpoC763441c.72C>T1.000
rpoC763444c.75T>C1.000
rpoC763456c.87A>G1.000
rpoC763486c.117T>G1.000
rpoC763528c.159G>A1.000
rpoC763546c.177A>G1.000
rpoC763570c.201G>C1.000
rpoC763573c.204G>C1.000
rpoC763594c.225C>T1.000
rpoC763603c.234C>T1.000
rpoC763765c.396T>C1.000
rpoC763774c.405G>C1.000
rpoC763807c.438T>C1.000
rpoC763816c.447C>G1.000
rpoC763835p.Ala156Met1.000
rpoC763853p.Val162Ile1.000
rpoC763858c.489A>G1.000
rpoC763872p.Gly168Ala1.000
rpoC763876p.Glu169Asp1.000
rpoC763879c.510A>G1.000
rpoC763888c.519G>C1.000
rpoC763891c.522G>C1.000
rpoC763894c.525A>G1.000
rpoC763900c.531G>C1.000
rpoC763936c.567C>G1.000
rpoC763939c.570G>A1.000
rpoC763942c.573C>G1.000
rpoC763948c.579G>A1.000
rpoC763949c.580C>A1.000
rpoC763954c.585C>G1.000
rpoC763963c.594C>T0.900
rpoC763987c.618C>T1.000
rpoC763991p.Ile208Leu1.000
rpoC763996c.627T>C1.000
rpoC764002c.633C>G1.000
rpoC764005c.636G>C1.000
rpoC764024c.655T>C1.000
rpoC764032p.Asp221Glu1.000
rpoC764040p.Ser224Thr1.000
rpoC764044c.675T>C1.000
rpoC764059c.690G>T1.000
rpoC764083c.714A>G1.000
rpoC764098c.729A>G1.000
rpoC764101c.732C>G1.000
rpoC764102p.Val245Ile1.000
rpoC764112p.Tyr248Phe1.000
rpoC764116c.747C>T1.000
rpoC764131c.762T>C1.000
rpoC764140c.771C>T1.000
rpoC764188c.819A>G0.793
rpoC764195p.Ser276Ile0.769
rpoC764203c.834G>C0.769
rpoC764206c.837T>C1.000
rpoC764215c.846A>G1.000
rpoC764236c.867G>A1.000
rpoC764248c.879C>G1.000
rpoC764257c.888G>C1.000
rpoC764266c.897T>C1.000
rpoC764269c.900G>C1.000
rpoC764272c.903G>C1.000
rpoC764278c.909A>G1.000
rpoC764405c.1036A>C1.000
rpoC764419c.1050C>G1.000
rpoC764428c.1059G>C1.000
rpoC764431c.1062G>C1.000
rpoC764434c.1065A>G1.000
rpoC764446c.1077T>C1.000
rpoC764449c.1080G>C1.000
rpoC764452c.1083T>C1.000
rpoC764458c.1089G>C1.000
rpoC764461c.1092A>G1.000
rpoC764489c.1120C>T1.000
rpoC764497c.1128A>G1.000
rpoC764510c.1141C>T1.000
rpoC764521c.1152T>C1.000
rpoC764527c.1158C>T1.000
rpoC764536c.1167G>C1.000
rpoC764539c.1170C>G1.000
rpoC764554c.1185C>T1.000
rpoC764560c.1191T>C1.000
rpoC764566c.1197C>G1.000
rpoC764575c.1206T>G1.000
rpoC764581c.1212T>C1.000
rpoC764593c.1224C>T1.000
rpoC764611c.1242G>T1.000
rpoC764650c.1281G>C1.000
rpoC764651c.1282T>A1.000
rpoC764752c.1383G>C1.000
rpoC764764c.1395T>C1.000
rpoC764809c.1440C>T1.000
rpoC764815c.1446A>G1.000
rpoC764827c.1458G>C1.000
rpoC764858c.1489T>C1.000
rpoC764872c.1503A>G1.000
rpoC764888c.1519T>C1.000
rpoC764911c.1542A>G1.000
rpoC764932c.1563C>A1.000
rpoC764935c.1566T>C1.000
rpoC764948c.1579T>C1.000
rpoC764968c.1599T>C1.000
rpoC764995c.1626C>G1.000
rpoC765019c.1650A>G1.000
rpoC765034c.1665T>C1.000
rpoC765040c.1671T>C1.000
rpoC765041c.1672T>C1.000
rpoC765047c.1678T>C1.000
rpoC765053c.1684T>A1.000
rpoC765073c.1704G>C1.000
rpoC765076c.1707A>G1.000
rpoC765079c.1710T>G1.000
rpoC765082c.1713G>C1.000
rpoC765089c.1720T>C1.000
rpoC765103c.1734G>T1.000
rpoC765292c.1923G>C1.000
rpoC765298c.1929G>C1.000
rpoC765300p.Val644Ala1.000
rpoC765319c.1950A>G1.000
rpoC765326p.His653Ala1.000
rpoC765329p.Ser654Gly1.000
rpoC765346c.1977C>G1.000
rpoC765349c.1980T>C1.000
rpoC765352c.1983G>C1.000
rpoC765383p.Met672Leu1.000
rpoC765404p.Leu679Val1.000
rpoC765409c.2040T>C1.000
rpoC765421c.2052C>G1.000
rpoC765478c.2109T>C1.000
rpoC765499c.2130C>G1.000
rpoC765529c.2160C>T1.000
rpoC765541c.2172C>G1.000
rpoC765553c.2184C>T1.000
rpoC765556c.2187G>C1.000
rpoC765559c.2190G>C1.000
rpoC765580c.2211G>C1.000
rpoC765613p.His748Gln1.000
rpoC765625c.2256C>G1.000
rpoC765631p.Asp754Glu1.000
rpoC765700c.2331T>C1.000
rpoC765734c.2365T>C1.000
rpoC765739c.2370G>T1.000
rpoC765751c.2382C>G1.000
rpoC765753p.Asp795Ala1.000
rpoC765772c.2403C>G1.000
rpoC765784c.2415C>G1.000
rpoC765787c.2418C>T1.000
rpoC765796c.2427C>T1.000
rpoC765811c.2442T>C1.000
rpoC765814c.2445A>G1.000
rpoC765826c.2457T>C1.000
rpoC765835c.2466C>T1.000
rpoC765850c.2481G>C1.000
rpoC765883c.2514C>G1.000
rpoC765886c.2517C>G1.000
rpoC765892c.2523T>C1.000
rpoC765937c.2568T>C1.000
rpoC765967c.2598C>T1.000
rpoC765982c.2613C>G1.000
rpoC765994c.2625A>T1.000
rpoC766010c.2641T>A1.000
rpoC766021c.2652G>C1.000
rpoC766027c.2658G>C1.000
rpoC766030c.2661C>G1.000
rpoC766043p.Gln892Glu1.000
rpoC766054c.2685C>G1.000
rpoC766082p.Ala905Gln1.000
rpoC766096c.2727G>C1.000
rpoC766129c.2760C>G1.000
rpoC766135c.2766G>A1.000
rpoC766141c.2772C>T1.000
rpoC766142c.2773C>T1.000
rpoC766174p.Asn935Lys1.000
rpoC766178p.Ile937Val1.000
rpoC766408c.3039C>G1.000
rpoC766411c.3042C>G1.000
rpoC766426c.3057C>T1.000
rpoC766447c.3078T>C1.000
rpoC766462c.3093G>C1.000
rpoC766483c.3114G>C1.000
rpoC766484p.Val1039Ile1.000
rpoC766492c.3123T>C1.000
rpoC766522c.3153C>G1.000
rpoC766528c.3159T>C1.000
rpoC766531c.3162G>C1.000
rpoC766540p.Asp1057Glu1.000
rpoC766549c.3180G>T1.000
rpoC766573c.3204T>C1.000
rpoC766582c.3213C>G1.000
rpoC766583p.Gly1072Ser1.000
rpoC766591c.3222A>G1.000
rpoC766594c.3225G>C1.000
rpoC766597c.3228C>G1.000
rpoC766607p.Ile1080Leu1.000
rpoC766630c.3261G>C1.000
rpoC766657c.3288A>G1.000
rpoC766660c.3291G>C1.000
rpoC766672c.3303T>C1.000
rpoC766673p.Gly1102Asn1.000
rpoC766726c.3357T>C1.000
rpoC766738c.3369G>C1.000
rpoC766765c.3396A>C1.000
rpoC766774c.3405T>C1.000
rpoC766801c.3432C>G1.000
rpoC766804c.3435A>G1.000
rpoC766861c.3492G>C1.000
rpoC766864c.3495G>C1.000
rpoC766876c.3507C>T1.000
rpoC766882c.3513C>T1.000
rpoC766894c.3525T>C1.000
rpoC766895c.3526T>C1.000
rpoC766900c.3531T>C1.000
rpoC766933c.3564A>G1.000
rpoC766945c.3576A>G1.000
rpoC766963c.3594T>C0.800
rpoC767059c.3690T>G1.000
rpsL781571c.12C>T1.000
rpsL781595c.36T>C1.000
rpsL781605p.Ile16Val1.000
rpsL781608p.Ser17Ala1.000
rpsL781628c.69T>C1.000
rpsL781631c.72G>C1.000
rpsL781649c.90T>C1.000
rpsL781655c.96T>C1.000
rpsL781700c.141G>C1.000
rpsL781703c.144G>T0.960
rpsL781715c.156T>C1.000
rpsL781728c.169T>C1.000
rpsL781736c.177T>C1.000
rpsL781742c.183C>T1.000
rpsL781748c.189C>G1.000
rpsL781754c.195G>C1.000
rpsL781760c.201T>C1.000
rpsL781772c.213C>A1.000
rpsL781808c.249C>T1.000
rpsL781811c.252C>T1.000
rpsL781832c.273T>C1.000
rpsL781838c.279G>C1.000
rpsL781841c.282C>G1.000
rpsL781865c.306G>C1.000
rpsL781877c.318T>C1.000
rpsL781892c.333A>G1.000
rplC800794c.-15A>G1.000
rplC800796c.-13A>G1.000
rplC800798c.-11TGG>T1.000
rplC800814c.6A>G1.000
rplC800817c.9A>T1.000
rplC800844c.36T>C1.000
rplC800865c.57A>G1.000
rplC800867p.Ser20Asn1.000
rplC800874c.66A>G1.000
rplC800875p.Val23Ile1.000
rplC800880c.72A>G1.000
rplC800889c.81C>G1.000
rplC800892c.84G>C1.000
rplC800907c.99C>G1.000
rplC800916c.108A>G1.000
rplC800934c.126C>G1.000
rplC800937c.129A>G1.000
rplC800939p.Arg44Gln1.000
rplC800946c.138T>C1.000
rplC800949c.141T>C1.000
rplC801039c.231A>G1.000
rplC801045c.237A>G1.000
rplC801047p.Tyr80Phe1.000
rplC801049c.241C>T1.000
rplC801054c.246G>C1.000
rplC801127p.Ala107Thr1.000
rplC801132c.324T>C1.000
rplC801147c.339T>C1.000
rplC801150c.342G>C1.000
rplC801153c.345G>C1.000
rplC801156c.348T>A1.000
rplC801168c.360C>G1.000
rplC801171c.363A>G1.000
rplC801174c.366T>C1.000
rplC801195c.387G>C1.000
rplC801207c.399C>T1.000
rplC801246c.438C>T1.000
rplC801249c.441T>C1.000
rplC801255c.447C>T1.000
rplC801264c.456C>T1.000
rplC801267c.459A>T1.000
rplC801270c.462T>C1.000
rplC801276c.468G>C1.000
rplC801279c.471G>C1.000
rplC801282c.474G>C1.000
rplC801285c.477G>C1.000
rplC801300c.492C>G1.000
rplC801309c.501C>G1.000
rplC801312c.504G>C1.000
rplC801321c.513C>T1.000
rplC801324c.516T>C1.000
rplC801339c.531T>C1.000
rplC801341p.Leu178Gln1.000
rplC801348c.540T>G1.000
rplC801357c.549T>C1.000
rplC801367p.Ala187Thr1.000
rplC801402c.594T>C1.000
rplC801405c.597T>C0.900
rplC801423c.615G>C1.000
rplC801426c.618C>G1.000
rplC801427p.Met207Val1.000
rplC801438c.630T>C1.000
rplC801442p.Ile212Val1.000
rrs1471923r.78t>c1.000
rrs1471925r.80t>c1.000
rrs1471932r.87a>g1.000
rrs1471934r.89a>g1.000
rrs1471969r.124t>c1.000
rrs1471970r.125g>a1.000
rrs1472108r.263c>t1.000
rrs1472193r.348a>t0.420
rrs1472225r.380c>a0.191
rrs1472240r.395g>c0.576
rrs1472242r.397c>t0.503
rrs1472251r.406g>t0.574
rrs1472252r.407g>a0.475
rrs1472253r.408g>t0.484
rrs1472256r.411t>a0.475
rrs1472259r.414c>a0.516
rrs1472278r.433c>t0.197
rrs1472279r.434t>g0.354
rrs1472285r.440a>g0.426
rrs1472286r.441c>g0.148
rrs1472287r.442c>t0.246
rrs1472288r.443a>t0.230
rrs1472289r.444t>g0.574
rrs1472290r.445c>g0.447
rrs1472300r.455c>t0.963
rrs1472309r.464c>t0.152
rrs1472311r.466c>t0.139
rrs1472313r.468g>a0.143
rrs1472315r.470t>g0.509
rrs1472324r.479g>c0.429
rrs1472325r.480g>c0.429
rrs1472326r.481t>g0.206
rrs1472329r.484a>t0.161
rrs1472330r.485g>a0.165
rrs1472344r.499c>t0.812
rrs1472349r.504a>c0.247
rrs1472374r.529t>g0.253
rrs1472382r.537g>a0.503
rrs1472389r.544g>a0.555
rrs1472390r.545t>a0.349
rrs1472391r.546c>t0.540
rrs1472412r.567a>c0.467
rrs1472415r.570t>g0.287
rrs1472422r.577t>c0.339
rrs1472435r.590t>c0.548
rrs1472438r.593t>c0.214
rrs1472439r.594c>t0.548
rrs1472443r.598a>t0.341
rrs1472446r.601t>g0.250
rrs1472448r.603t>c0.438
rrs1472450r.605a>g0.344
rrs1472451r.606c>g0.161
rrs1472452r.607g>a0.290
rrs1472461r.616g>c0.152
rrs1472462r.617t>c0.333
rrs1472464r.619a>g0.424
rrs1472466r.621c>a0.273
rrs1472467r.622g>c0.273
rrs1472471r.626g>a0.424
rrs1472485r.640g>a0.297
rrs1472489r.644a>t0.378
rrs1472494r.649a>g0.433
rrs1472496r.651t>a0.133
rrs1472498r.653c>t0.500
rrs1472507r.662c>a0.333
rrs1472517r.672t>a0.509
rrs1472518r.673g>t0.205
rrs1472530r.685g>a0.546
rrs1472537r.692c>t0.445
rrs1472541r.696t>g0.375
rrs1472544r.699c>a0.248
rrs1472545r.700a>t0.528
rrs1472553r.708c>t0.261
rrs1472557r.712g>a0.391
rrs1472558r.713g>a0.194
rrs1472569r.724g>a0.194
rrs1472570r.725g>a0.164
rrs1472571r.726g>c0.646
rrs1472572r.727t>c0.275
rrs1472573r.728c>t0.208
rrs1472574r.729t>c0.264
rrs1472579r.734g>a0.365
rrs1472581r.736a>c0.333
rrs1472582r.737g>t0.206
rrs1472584r.739a>t0.237
rrs1472594r.749g>c0.212
rrs1472598r.753a>c0.373
rrs1472599r.754g>a0.158
rrs1472616r.771g>a0.537
rrs1472634r.789t>g0.203
rrs1472635r.790g>a0.262
rrs1472969r.1124a>g1.000
rrs1472970r.1125c>g1.000
rrs1472977r.1132g>c1.000
rrs1472978r.1133t>c1.000
rrs1473105r.1260g>a1.000
rrs1473120r.1275c>ct1.000
rrs1473123r.1278a>t1.000
rrs1473145r.1300c>t1.000
rrs1473166r.1321g>a1.000
rrs1473290r.1445c>t1.000
rrl1473399c.-259A>AG1.000
rrl1473401c.-257G>A1.000
rrl1473408c.-250C>T1.000
rrl1473417c.-241C>T1.000
rrl1473419c.-239T>C1.000
rrl1473420c.-238A>G1.000
rrl1473421c.-237G>A1.000
rrl1473437c.-221T>C1.000
rrl1473449c.-209G>A1.000
rrl1473668r.11c>t1.000
rrl1473756r.99g>a1.000
rrl1473758r.101g>t1.000
rrl1473806r.149c>t1.000
rrl1473986r.329t>c1.000
rrl1473987r.330g>a1.000
rrl1473995r.338g>t1.000
rrl1474001r.344c>t1.000
rrl1474009r.352a>g1.000
rrl1474012r.355c>t1.000
rrl1474093r.436g>t1.000
rrl1474099r.442g>a1.000
rrl1474103r.446a>t1.000
rrl1474140r.483c>t1.000
rrl1474151r.494c>t1.000
rrl1474181r.524c>t1.000
rrl1474249r.592g>t1.000
rrl1474291r.634tttcctctccggagga>t1.000
rrl1474308r.651g>t1.000
rrl1474310r.653t>g1.000
rrl1474356r.699t>c1.000
rrl1474362r.705a>g1.000
rrl1474376r.719t>c1.000
rrl1474639r.982g>a1.000
rrl1474794r.1137c>t1.000
rrl1474812r.1155g>a1.000
rrl1474823r.1166c>t1.000
rrl1474831r.1174a>g1.000
rrl1474904r.1247g>a1.000
rrl1474956r.1299c>t1.000
rrl1474961r.1304t>g1.000
rrl1474963r.1306g>a1.000
rrl1474964r.1307t>c1.000
rrl1474970r.1313g>a1.000
rrl1475006r.1349a>t1.000
rrl1475013r.1356g>a1.000
rrl1475249r.1592t>c1.000
rrl1475252r.1595c>t1.000
rrl1475266r.1609t>c1.000
rrl1475275r.1618c>t1.000
rrl1475276r.1619t>c1.000
rrl1475291r.1634a>c1.000
rrl1475313r.1656g>a1.000
rrl1475315r.1658a>t1.000
rrl1475355r.1698c>t1.000
rrl1475369r.1712g>t1.000
rrl1475402r.1745c>t1.000
rrl1475419r.1762c>t1.000
rrl1475483r.1826c>t1.000
rrl1475526r.1869c>a1.000
rrl1475599r.1942a>g1.000
rrl1475608r.1951t>c1.000
rrl1475638r.1981c>t1.000
rrl1475642r.1985t>c1.000
rrl1475657r.2000a>g1.000
rrl1475659r.2002g>t1.000
rrl1475758r.2101ac>a1.000
rrl1475763r.2106c>t1.000
rrl1475765r.2108ag>a1.000
rrl1475881r.2224t>c1.000
rrl1475988r.2331a>g1.000
rrl1476115r.2458t>c1.000
rrl1476117r.2460g>c1.000
rrl1476594r.2937c>t1.000
rrl1476597r.2940g>a1.000
rrl1476603r.2946g>a1.000
rrl1476608r.2951c>g1.000
fabG11673523c.84G>T1.000
fabG11673633p.Ser65Asn1.000
fabG11673637p.Asp66Glu1.000
fabG11673641p.Val68Ile1.000
fabG11673657p.Thr73Lys1.000
fabG11673660p.Ala74Glu1.000
fabG11673664c.225A>C1.000
fabG11673667c.228A>G1.000
fabG11673679c.240T>C1.000
fabG11673685c.246C>T1.000
fabG11673710p.Leu91Ile1.000
fabG11673716p.Ala93Lys1.000
fabG11673733p.Met98Ile1.000
fabG11673748c.309A>G1.000
fabG11673749p.Lys104Arg1.000
fabG11673758p.Lys107Glu1.000
fabG11673797p.Ala120Thr1.000
fabG11673802c.363A>G1.000
fabG11673805c.366G>C1.000
fabG11673808c.369A>C1.000
fabG11673809p.Ser124Ala1.000
fabG11673829p.Asn130Lys1.000
fabG11673841c.402A>C1.000
fabG11673844p.Met135Ile1.000
fabG11673847c.408A>C1.000
fabG11673849p.Phe137Tyr1.000
fabG11673853c.414A>C1.000
fabG11673856c.417T>C1.000
fabG11673890p.Ala151Ser1.000
fabG11673916c.477A>C1.000
fabG11673917p.Val160Leu1.000
fabG11673922c.483T>C1.000
fabG11673941p.Ala168Ser0.917
fabG11673955c.516G>C1.000
fabG11673961c.522A>C1.000
fabG11673985c.546C>G1.000
inhA1674352p.Thr51Ala0.600
inhA1674942c.741T>G1.000
inhA1674954c.753G>C1.000
inhA1674960c.759C>G1.000
inhA1674967p.Asp256Thr0.900
rpsA1833511c.-31GA>G1.000
rpsA1833512c.-30AC>A1.000
rpsA1833518c.-24C>A1.000
rpsA1833532c.-10A>C1.000
rpsA1833554p.Thr5Ala1.000
rpsA1833568c.27G>C1.000
rpsA1833661c.120A>G1.000
rpsA1833667c.126C>G1.000
rpsA1833721c.180A>G1.000
rpsA1833724c.183C>G1.000
rpsA1833727c.186G>C1.000
rpsA1833742c.201A>G1.000
rpsA1833745c.204G>C1.000
rpsA1833748c.207C>G1.000
rpsA1833787c.246C>G1.000
rpsA1833790c.249T>C1.000
rpsA1833802c.261A>G1.000
rpsA1833811c.270G>T1.000
rpsA1833838c.297G>C1.000
rpsA1833841c.300C>G1.000
rpsA1833847c.306C>G1.000
rpsA1833856c.315A>G1.000
rpsA1833874c.333T>C1.000
rpsA1833886c.345C>G1.000
rpsA1833928c.387G>C1.000
rpsA1833940c.399C>G1.000
rpsA1833971c.430C>T1.000
rpsA1833979c.438T>C1.000
rpsA1834000c.459G>C1.000
rpsA1834021c.480C>T1.000
rpsA1834030c.489C>G1.000
rpsA1834081c.540C>T1.000
rpsA1834096c.555G>C1.000
rpsA1834099c.558C>G1.000
rpsA1834102c.561T>C1.000
rpsA1834105c.564C>G1.000
rpsA1834108c.567C>G1.000
rpsA1834123c.582C>G1.000
rpsA1834189c.648G>C1.000
rpsA1834195c.654G>C1.000
rpsA1834210c.669C>T1.000
rpsA1834222c.681T>C1.000
rpsA1834231c.690T>C1.000
rpsA1834234c.693G>C1.000
rpsA1834249c.708T>C1.000
rpsA1834261c.720A>G1.000
rpsA1834262c.721T>A1.000
rpsA1834303c.762T>C1.000
rpsA1834306c.765T>C1.000
rpsA1834348c.807T>C1.000
rpsA1834366c.825A>G1.000
rpsA1834396c.855G>C1.000
rpsA1834411c.870T>C1.000
rpsA1834417c.876G>C1.000
rpsA1834423c.882G>C1.000
rpsA1834435c.894G>C1.000
rpsA1834451c.910T>C1.000
rpsA1834465c.924T>C1.000
rpsA1834468c.927A>G1.000
rpsA1834489c.948T>C1.000
rpsA1834513c.972C>G1.000
rpsA1834528c.987T>C1.000
rpsA1834540c.999G>C1.000
rpsA1834546c.1005T>C1.000
rpsA1834555c.1014T>G1.000
rpsA1834609c.1068T>C1.000
rpsA1834618c.1077G>C1.000
rpsA1834633c.1092A>G1.000
rpsA1834639c.1098T>C1.000
rpsA1834654p.Glu371Asp1.000
rpsA1834690c.1149T>C1.000
rpsA1834732c.1191T>C1.000
rpsA1834733p.Ala398Ser1.000
rpsA1834738c.1197A>G1.000
rpsA1834753c.1212T>C1.000
rpsA1834765p.Glu408Asp1.000
rpsA1834775p.Ala412Thr1.000
rpsA1834780c.1239A>G1.000
rpsA1834786c.1245A>G1.000
rpsA1834789c.1248T>C1.000
rpsA1834792c.1251G>C1.000
kasA2518190p.Ser26Ala1.000
kasA2518199p.Ile29Val1.000
kasA2518220c.106C>T1.000
kasA2518459c.345T>C1.000
kasA2518462c.348A>C1.000
kasA2518468c.354A>C1.000
kasA2518474c.360G>A1.000
kasA2518480c.366T>C1.000
kasA2518483c.369C>G1.000
kasA2518504c.390T>C1.000
kasA2518506p.Ala131Glu1.000
kasA2518519c.405G>C1.000
kasA2518528c.414C>G1.000
kasA2518540c.426T>C1.000
kasA2518561c.447T>C1.000
kasA2518825c.711T>C1.000
ahpC2726198c.6A>T1.000
ahpC2726204c.12A>G1.000
ahpC2726210c.18T>C1.000
ahpC2726216c.24T>C1.000
ahpC2726219c.27A>G1.000
ahpC2726232p.Gln14Glu1.000
ahpC2726243c.51T>G1.000
ahpC2726244c.52C>T1.000
ahpC2726251p.Gly20Ala1.000
ahpC2726255c.63T>C1.000
ahpC2726258c.66C>T1.000
ahpC2726303c.111T>C1.000
ahpC2726348c.156T>C1.000
ahpC2726357c.165A>G1.000
ahpC2726366c.174G>C1.000
ahpC2726638p.Ala149Val1.000
ahpC2726645c.453C>G1.000
ahpC2726657c.465A>C1.000
ahpC2726669p.Asp159Glu1.000
ahpC2726672c.480G>A1.000
ahpC2726675c.483A>G1.000
ahpC2726681c.489A>C1.000
ahpC2726693c.501C>G1.000
ahpC2726696c.504C>G1.000
ahpC2726717c.525A>G1.000
ahpC2726747c.555A>C1.000
thyX3067232c.714G>C1.000
thyX3067274c.672G>C1.000
thyX3067277c.669G>C1.000
thyX3067281p.Val222Ala1.000
thyX3067284p.Ala221Gly1.000
thyX3067286c.660G>C1.000
thyX3067289c.657G>C1.000
thyX3067292c.654C>T1.000
thyX3067295c.651G>A1.000
thyX3067316c.630T>C1.000
thyX3067325c.621T>C1.000
thyX3067349c.597C>G1.000
thyX3067355c.591T>G1.000
thyX3067367c.579C>G1.000
thyX3067373c.573G>C1.000
thyX3067376c.570C>T1.000
thyX3067391c.555C>G1.000
thyX3067394c.552C>G1.000
thyX3067439c.507T>C1.000
thyX3067445c.501G>C1.000
thyX3067457c.489G>C1.000
thyX3067465p.Ile161Val1.000
thyX3067475c.471T>C1.000
thyX3067490c.456G>C1.000
thyX3067493c.453T>C1.000
thyX3067515p.Ser144Thr0.867
thyX3067531p.Ala139Ser1.000
thyX3067545p.Glu134Ala1.000
thyX3067549p.Thr133Ala1.000
thyX3067556p.His130Gln1.000
thyX3067559c.387G>C1.000
thyX3067565p.Asp127Glu1.000
thyX3067570p.Ala126Pro1.000
thyX3067577c.369C>T1.000
thyX3067583c.363G>C1.000
thyX3067602p.Arg115His1.000
thyX3067611p.Lys112Thr1.000
thyX3067619c.327T>G1.000
thyX3067631c.315G>C1.000
thyX3067634c.312G>C1.000
thyX3067652c.294A>G1.000
thyX3067661c.285G>C1.000
thyX3067685c.261T>G1.000
thyX3067693p.Ile85Leu1.000
thyX3067694c.252C>G1.000
thyX3067718c.228G>C1.000
thyX3067721c.225A>G1.000
thyX3067727c.219T>G1.000
thyX3067738p.Phe70Leu1.000
thyX3067739c.207A>G1.000
thyX3067762p.Arg62Lys1.000
thyX3067765p.Leu61Ile1.000
thyX3067772c.174G>C1.000
thyX3067781c.165G>T1.000
thyX3067793c.153A>G1.000
thyX3067799c.147C>T1.000
thyX3067802c.144G>C1.000
thyX3067814c.132A>G1.000
thyX3067850c.96T>G1.000
thyX3067869p.Thr26Ser1.000
thyX3067874c.72G>C1.000
thyX3067883c.63G>C1.000
thyX3067886c.60T>G1.000
thyX3067889c.57G>C1.000
thyX3067898p.Asp16Glu1.000
thyX3067935p.Thr4Ile1.000
thyA3073812c.660G>C1.000
thyA3073815c.657C>T1.000
thyA3073824c.648T>C1.000
thyA3073827c.645T>C1.000
thyA3073836c.636G>A1.000
thyA3073839c.633A>G1.000
thyA3073860c.612G>C1.000
thyA3073863c.609A>G1.000
thyA3073866c.606G>C1.000
thyA3073874p.Ile200Val1.000
thyA3073892c.580A>G1.000
thyA3073898p.Ala192Ser1.000
thyA3073953c.519A>G1.000
thyA3073956c.516C>G1.000
thyA3073959c.513A>G1.000
thyA3073977c.495T>C1.000
thyA3073989c.483A>G1.000
thyA3074010c.462G>C1.000
thyA3074028c.444C>G1.000
thyA3074031c.441A>G1.000
thyA3074034c.438A>G1.000
thyA3074037c.435G>C1.000
thyA3074079c.393C>G1.000
thyA3074097c.375G>C1.000
thyA3074102p.Asp124Asn1.000
thyA3074106c.366A>G1.000
thyA3074127c.345C>G1.000
thyA3074181c.291T>C1.000
thyA3074187c.285A>G1.000
thyA3074205p.Glu89Asp1.000
thyA3074214c.258A>G1.000
thyA3074346c.126G>A1.000
thyA3074349c.123A>G1.000
thyA3074360c.112A>G1.000
thyA3074361c.111A>G1.000
thyA3074364c.108A>G1.000
thyA3074372p.Met34Leu1.000
thyA3074377p.Gln32Arg1.000
thyA3074391c.81G>T1.000
thyA3074397c.75T>C1.000
thyA3074412c.60G>A0.733
ald3087635c.816C>T1.000
ald3087641c.822T>C1.000
ald3087647c.828A>G1.000
ald3087649p.Gly277Asp1.000
ald3087653c.834A>G1.000
ald3087656c.837A>G1.000
ald3087665c.846C>G1.000
ald3087666p.Tyr283His1.000
ald3087672p.His285Asp1.000
ald3087680c.861G>C1.000
ald3087704c.885T>C1.000
ald3087761c.942C>G1.000
ald3087770c.951G>C1.000
fbiA3640347c.-196A>G1.000
fbiA3640349c.-194A>G1.000
fbiA3640350c.-193C>T1.000
fbiA3640365c.-178C>G1.000
fbiA3640857c.315G>C1.000
fbiA3640866c.324T>C1.000
fbiA3640871p.Ala110Gly1.000
fbiA3640878c.336T>C1.000
fbiA3640899c.357G>C1.000
fbiA3640900p.Gln120Asn1.000
fbiA3640914c.372C>G1.000
fbiA3640930p.Glu130Thr1.000
fbiA3640935c.393C>G1.000
fbiA3640938c.396A>G1.000
fbiA3640944c.402T>C1.000
fbiA3641288p.Glu249Gly1.000
alr3840382p.Met347Val1.000
alr3840968c.453C>G1.000
alr3840980c.441C>G1.000
alr3840989c.432C>G1.000
alr3840994p.His143Asp1.000
alr3840997c.424C>G1.000
alr3841001c.420T>C1.000
alr3841010c.411T>C1.000
alr3841018p.Leu135Glu1.000
alr3841022c.399G>C1.000
alr3841028c.393C>G1.000
alr3841033p.Val130Ile1.000
alr3841039p.Val128Ile1.000
alr3841059p.Gly121Ala1.000
alr3841069p.Ile118Phe1.000
alr3841079c.342A>G1.000
alr3841127c.294T>C1.000
panD4043867p.Gly139Arg1.000
panD4043872p.Gly137Val1.000
panD4043876p.Leu136Ile1.000
panD4043883c.399G>A1.000
panD4043886c.396T>C1.000
panD4043896p.Gly129Ala1.000
panD4043903p.Asn127Asp1.000
panD4043913c.369A>G1.000
panD4043916c.366T>C1.000
panD4043922c.360A>G1.000
panD4044057c.225G>C1.000
panD4044072c.210G>C1.000
panD4044075c.207A>G1.000
panD4044081c.201A>G1.000
panD4044084c.198A>G1.000
panD4044105c.177C>G1.000
panD4044117c.165C>G1.000
panD4044120c.162T>G1.000
panD4044123c.159A>G1.000
panD4044126c.156A>G1.000
panD4044138c.144A>G1.000
panD4044144c.138G>A1.000
panD4044150c.132T>C1.000
panD4044165c.117C>G1.000
panD4044174c.108G>C1.000
panD4044177c.105G>C1.000
panD4044188c.94A>G1.000
panD4044189c.93G>A1.000
panD4044195c.87A>G1.000
embC4240348c.486T>C0.231
embC4240354c.492C>G0.231
embC4240355p.Ala165Thr0.231
embC4240543c.681G>C1.000
embC4240819c.957A>G1.000
embC4240828c.966G>C1.000
embC4240831c.969T>G1.000
embC4240867c.1005T>C1.000
embC4240996c.1134G>C1.000
embC4241002c.1140G>C1.000
embC4241013p.Met384Thr1.000
embC4241017c.1155T>C1.000
embC4241023c.1161T>G1.000
embC4241032c.1170G>C1.000
embC4241038c.1176G>C1.000
embC4241047c.1185C>G1.000
embC4241050c.1188T>G1.000
embC4241053c.1191G>C1.000
embC4241089c.1227C>G1.000
embC4241095c.1233C>T1.000
embC4241107c.1245G>C1.000
embC4241140c.1278A>G1.000
embC4241146c.1284C>G0.938
embC4241158c.1296T>C1.000
embC4241161c.1299C>G1.000
embC4241162c.1300T>C1.000
embC4241170c.1308G>C1.000
embC4241173c.1311C>T1.000
embC4241203c.1341T>C1.000
embC4241206c.1344G>C1.000
embC4241218c.1356G>C1.000
embC4241230c.1368A>G1.000
embC4241233c.1371G>C1.000
embC4241567p.Ile569Val1.000
embC4241572c.1710C>G1.000
embC4241578c.1716G>C1.000
embC4241584c.1722T>C1.000
embC4241587c.1725C>G1.000
embC4241591p.Leu577Val1.000
embC4241611c.1749G>C1.000
embC4241614c.1752A>C1.000
embC4241626c.1764T>C1.000
embC4241635c.1773G>C1.000
embC4241644c.1782G>C1.000
embC4241648c.1786T>C1.000
embC4241657p.Ser599Pro1.000
embC4241665c.1803G>C1.000
embC4241671c.1809T>C1.000
embC4241770c.1908T>C1.000
embC4241791c.1929G>C1.000
embC4241794c.1932C>G1.000
embC4241797c.1935C>T1.000
embC4241809c.1947A>C1.000
embC4241995c.2133C>G1.000
embC4242002p.Leu714Val1.000
embC4242011p.Leu717Val1.000
embC4242229c.2367C>A1.000
embC4242245p.Thr795Arg0.833
embC4242710p.Gln950Glu1.000
embC4242715c.2853T>C1.000
embC4242742c.2880C>G1.000
embC4242748c.2886A>G1.000
embC4242754c.2892G>C1.000
embC4242764p.Val968Leu1.000
embC4242779p.Asn973Asp1.000
embC4242791p.Ala977Ser1.000
embC4242796c.2934G>C1.000
embC4242799c.2937T>C1.000
embA4245845c.2613T>C1.000
embA4245851c.2619G>C1.000
embA4245860c.2628C>G1.000
embA4246256c.3024G>T1.000
embA4246264p.His1011Arg1.000
embA4246292c.3060A>G1.000
embA4246349c.3117C>G1.000
embB4246594c.81C>T1.000
embB4246603c.90C>G1.000
embB4246615c.102G>C1.000
embB4246621c.108T>C1.000
embB4246624c.111C>G1.000
embB4246627c.114T>C1.000
embB4246631c.118T>C1.000
embB4246636c.123G>C1.000
embB4246639c.126G>C1.000
embB4246642c.129G>C1.000
embB4246645c.132G>C1.000
embB4246669c.156C>G1.000
embB4247464c.951C>G1.000
embB4247470c.957T>C1.000
embB4247491c.978G>C1.000
embB4247497c.984T>C1.000
embB4247512c.999T>C1.000
embB4247539c.1026T>C1.000
embB4247554c.1041T>C1.000
embB4247566c.1053C>A1.000
embB4247572c.1059A>G1.000
embB4247603c.1090C>T1.000
embB4247611c.1098G>T1.000
embB4247614c.1101T>C1.000
embB4247776c.1263G>T1.000
embB4247821c.1308T>C1.000
embB4247830c.1317A>G1.000
embB4247836c.1323A>G1.000
embB4247839c.1326G>C1.000
embB4247866c.1353G>C0.833
embB4247875c.1362G>C0.818
embB4247876c.1363C>T0.818
embB4248070c.1557T>C1.000
embB4248085c.1572T>C1.000
embB4248097c.1584C>G1.000
embB4248130c.1617G>C1.000
embB4248133c.1620C>G1.000
embB4248139c.1626C>G1.000
embB4248142c.1629T>C1.000
embB4248143c.1630T>C1.000
embB4248157c.1644A>G1.000
embB4248199c.1686A>G1.000
embB4248200p.Ile563Val1.000
embB4248205c.1692C>G1.000
embB4248206p.Ser565Gly1.000
embB4248220c.1707A>C1.000
embB4248304c.1791G>C1.000
embB4248319c.1806A>G1.000
embB4248343c.1830G>C1.000
embB4248350c.1837T>C1.000
embB4248355c.1842A>G1.000
embB4248358c.1845C>G1.000
embB4248361c.1848A>C1.000
embB4248362p.Ser617Ala1.000
embB4248373c.1860C>G1.000
embB4248386c.1873C>A1.000
embB4248407p.Leu632Val1.000
embB4248410p.Phe633Leu1.000
embB4248419p.Leu636Met1.000
embB4248425c.1912T>C1.000
embB4248430c.1917T>C1.000
embB4248432p.Trp640Phe1.000
embB4248457c.1944T>C1.000
embB4248472c.1959T>C1.000
embB4248475c.1962G>C1.000
embB4248500p.Ile663Val1.000
embB4248504p.Asp664Gly1.000
embB4248508c.1995G>A1.000
embB4248512p.Thr667Ser1.000
embB4248535c.2022C>G1.000
embB4249135c.2622G>C1.000
embB4249138c.2625C>G1.000
embB4249145p.Thr878Ser1.000
embB4249153c.2640G>C1.000
embB4249164p.Ala884Asp1.000
embB4249375c.2862G>C1.000
embB4249381c.2868A>G1.000
embB4249384c.2871G>T1.000
embB4249417c.2904A>G1.000
embB4249423p.Asp970Glu1.000
embB4249424p.Leu971Met1.000
embB4249429c.2916C>T1.000
embB4249432c.2919A>G1.000
embB4249441c.2928A>G1.000
embB4249444c.2931T>C1.000
embB4249469p.Leu986Met1.000
embB4249486c.2973T>G1.000
embB4249498c.2985G>C1.000
embB4249521p.Ala1003Val1.000
ethA4326307c.1167G>C1.000
ethA4326310c.1164A>G1.000
ethA4326847c.627G>C1.000
ethA4326850c.624T>C1.000
gid4407622p.Asn194Thr1.000
gid4407652p.Val184Ala1.000
gid4407654c.549C>G1.000

Analysis pipeline specifications

TBProfiler Version: 2.1.1

AnalysisProgram
Mappingbwa
Variant CallingBCFtools


Log

Drug Details
The estimated accuracy of drug resistance predictions is:

Drug1Sensitivity (%)Specificity (%)
Isoniazid 92.8 (89.9-95.7)100 (100-100)
Rifampicin 96.2 (93.9-98.5)98.1 (96.8-99.4)
Ethambutal 88.7 (83.6-93.8)81.7 (77.6-85.8)
Pyrazinamide70.9 (62.4-79.4)93.9 (90.6-97.2)
Streptomycin87.1 (82.7-91.5)89.7 (86.0-93.4)
Ethionamide 73.6 (66.7-80.5)93.3 (89.6-97.0)
Moxifloxacin60.0 (29.6-90.4)68.7 (52.6-84.8)
Ofloxacin 85.5 (79.1-91.9)94.9 (91.8-98.0)
Amikacin 82.9 (74.4-91.4)98.3 (96.0-100)
Capreomycin 60.7 (50.6-70.8)90.7 (87.2-94.2)
Kanamycin 87.3 (81.3-93.3)93.4 (89.9-96.9)
Para-aminosalisylic acidNot determinedNot determined
Linezolid Not determinedNot determined
Clofazimine Not determinedNot determined
Bedaquiline Not determinedNot determined
Multi drug resistance91.2 (87.8-94.6)98.4 (97.2-99.6)
Extremely drug resistance75.9 (64.5-87.3)98.4 (97.3-99.5)

Lineages
Lineage2LocationStrainRD type
lineage1Indo-OceanicEAIRD239
lineage1.1Indo-OceanicEAI3;EAI4;EAI5;EAI6RD239
lineage1.1.1Indo-OceanicEAI4;EAI5RD239
lineage1.1.1.1Indo-OceanicEAI4;ZERORD239
lineage1.1.2Indo-OceanicEAI3;EAI5RD239
lineage1.1.3Indo-OceanicEAI6RD239
lineage1.2Indo-OceanicEAI1;EAI2RD239
lineage1.2.1Indo-OceanicEAI2RD239
lineage1.2.2Indo-OceanicEAI1RD239
lineage2East-AsianBeijingRD105
lineage2.1East-Asian (non-Beijing)NoneNone
lineage2.2East-Asian (Beijing)Beijing-RD207RD105;RD207
lineage2.2.2East-Asian (Beijing)Beijing-RD105/RD207RD105;RD207
lineage2.2.1East-Asian (Beijing)Beijing-RD181RD105;RD207;RD181
lineage2.2.1.2East-Asian (Beijing)Beijing-RD142RD105;RD207;RD181;RD142
lineage2.2.1.1East-Asian (Beijing)Beijing-RD150RD105;RD207;RD181;RD150
lineage3East-African-IndianCASRD750
lineage3.1East-African-IndianNon-CAS1-DelhiRD750
lineage3.1.1East-African-IndianCAS1-KiliRD750
lineage3.1.2East-African-IndianCAS;CAS2RD750
lineage3.1.2.1East-African-IndianCAS2RD750
lineage3.1.2.2East-African-IndianCASRD750
lineage4Euro-AmericanLAM;T;S;X;HNone
lineage4.1Euro-AmericanT;X;HNone
lineage4.1.2Euro-American (X-type)T;HNone
lineage4.1.2.1Euro-American (X-type)T1;H1RD182
lineage4.1.1Euro-American (X-type)X1;X2;X3None
lineage4.1.1.2Euro-American (X-type)X1None
lineage4.1.1.1Euro-American (X-type)X2RD183
lineage4.1.1.3Euro-American (Haarlem)X1;X3RD193
lineage4.2Euro-AmericanH;T;LAMNone
lineage4.2.2Euro-American (Ural)T;LAM7-TURNone
lineage4.2.2.1Euro-AmericanLAM7-TURNone
lineage4.2.1Euro-American (TUR)H3;H4None
lineage4.3Euro-American (LAM)mainly-LAMNone
lineage4.3.1Euro-American (LAM)LAM9None
lineage4.3.3Euro-American (LAM)LAM;TRD115
lineage4.3.4Euro-American (LAM)LAMRD174
lineage4.3.4.1Euro-American (LAM)LAM1;LAM2RD174
lineage4.3.4.2Euro-American (LAM)LAM1;LAM4;LAM11RD174
lineage4.3.4.2.1Euro-American (LAM)LAM11RD174
lineage4.3.2Euro-American (LAM)LAM3None
lineage4.3.2.1Euro-American (LAM)LAM3RD761
lineage4.4Euro-AmericanS;TNone
lineage4.4.2Euro-AmericanT1;T2None
lineage4.4.1Euro-American (S-type)S;TNone
lineage4.4.1.2Euro-AmericanT1None
lineage4.4.1.1Euro-AmericanS;OrphansNone
lineage4.5Euro-AmericanH;TRD122
lineage4.6Euro-AmericanT;LAMNone
lineage4.6.1Euro-American (Uganda)T2RD724
lineage4.6.1.1Euro-American T2-UgandaRD724
lineage4.6.1.2Euro-AmericanT2RD724
lineage4.6.2Euro-AmericanT;LAMRD726
lineage4.6.2.1Euro-AmericanT3RD726
lineage4.6.2.2Euro-American (Cameroon)LAM10-CAMRD726
lineage4.7Euro-American (mainly T)T1;T5None
lineage4.8Euro-American (mainly T)T1;T2;T3;T5RD219
lineage4.9Euro-American (H37Rv-like)T1None
lineage5West-Africa 1AFRI_2;AFRI_3RD711
lineage6West-Africa 2AFRI_1RD702
lineage7Lineage 7NoneNone
lineageBOVM. bovisBOV_1;BOV_2None

Citations
1. Coll F, et al. Rapid determination of anti-tuberculosis drug resistance from whole genome sequences. Genome Medicine (in press)
2. Coll F, et al. A robust SNP barcode for typing Mycobacterium tuberculosis complex strains. Nature Communications 2014.

Disclaimer
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